genome.fa.s22.2.7.7.80.10.50.1000.4.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Gbar_D09
Parameters: 2 7 7 80 10 50 1000
Length:  51526817

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   

This is table  4  of  172  ( 20605 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1010583--1010969	210	1.8	210	83	4	512	31	14	18	36	1.90
1010625--1011269	348	1.9	348	83	3	841	30	15	18	35	1.92
1010973--1011642	210	3.2	209	86	2	862	31	16	17	35	1.92
1026427--1026524	49	2.1	49	86	7	141	38	4	2	55	1.31
1040354--1040394	15	2.9	13	83	16	55	34	0	24	41	1.55
1042794--1042849	22	2.5	23	82	2	69	51	1	1	44	1.22
1042825--1042864	16	2.5	16	91	0	62	47	2	7	42	1.45
1042875--1043044	59	2.9	59	98	0	322	40	5	9	44	1.59
1043108--1043151	24	1.9	24	90	9	74	61	2	0	36	1.09
1051841--1051905	25	2.6	25	80	7	71	23	23	13	40	1.90
1054934--1054994	18	3.3	18	70	17	61	31	26	3	39	1.72
1054918--1054994	38	2.0	38	100	0	154	31	25	5	37	1.78
1059649--1059678	2	15.0	2	92	0	51	53	0	46	0	1.00
1060061--1060305	124	2.0	124	96	0	454	36	10	13	40	1.78
1067341--1067381	21	2.0	21	95	0	73	14	19	36	29	1.92
1069381--1069486	45	2.4	46	78	12	114	43	5	19	31	1.74
1074208--1074248	22	1.9	22	85	5	57	60	0	9	29	1.28
1075062--1075166	25	4.2	25	83	9	108	24	24	19	31	1.98
1079501--1079648	27	5.5	27	80	0	134	35	16	19	27	1.94
1082671--1083086	205	2.0	205	96	0	769	39	12	16	31	1.86
1096067--1096109	18	2.4	18	76	0	50	30	32	4	32	1.78
1100161--1100244	44	1.9	44	95	0	150	23	20	13	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1102259--1102300	21	2.0	21	85	0	57	14	7	21	57	1.61
1103383--1103429	23	2.0	23	100	0	94	17	34	12	36	1.87
1105912--1105952	13	3.2	13	83	13	57	34	24	0	41	1.55
1106012--1106081	26	2.8	25	80	4	77	31	25	21	21	1.98
1110380--1110418	6	6.5	6	100	0	78	15	15	51	17	1.77
1111561--1111591	16	1.9	16	100	0	62	32	0	25	41	1.56
1112520--1113208	273	2.5	273	92	2	1112	28	16	14	39	1.89
1116942--1116987	22	2.1	22	91	0	74	50	0	15	34	1.44
1118585--1118610	12	2.2	12	100	0	52	23	26	15	34	1.94
1123343--1123368	4	6.5	4	100	0	52	76	0	0	23	0.78
1126203--1126247	22	2.0	22	91	0	72	48	15	2	33	1.57
1130704--1130753	22	2.3	22	89	0	73	50	16	2	32	1.56
1142222--1142292	29	2.4	29	79	6	72	35	7	15	42	1.74
1142488--1142517	12	2.5	12	94	0	51	33	36	16	13	1.88
1142571--1142630	20	2.9	21	78	12	61	66	5	3	25	1.27
1156796--1156825	10	3.1	10	95	4	53	53	0	0	46	1.00
1165801--1165864	27	2.4	27	97	0	119	23	17	1	57	1.48
1165715--1166022	154	2.0	154	99	0	607	30	16	5	46	1.70
1165955--1166018	27	2.4	27	97	0	119	23	17	1	57	1.48
1167916--1167955	19	2.0	20	90	4	64	55	7	5	32	1.50
1168126--1168165	17	2.3	18	91	4	64	47	5	2	45	1.38
1176691--1176785	37	2.5	37	81	11	104	40	4	5	50	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1176716--1176843	69	1.9	68	88	1	193	42	3	4	49	1.39
1184515--1184583	33	2.1	33	94	0	120	33	4	20	42	1.72
1185508--1185545	18	2.2	18	86	9	53	57	2	23	15	1.51
1185503--1185588	43	2.0	43	88	4	129	54	2	19	23	1.55
1185573--1185620	20	2.5	20	89	3	71	62	0	14	22	1.32
1189707--1189738	12	2.7	12	90	0	55	6	53	0	40	1.26
1191585--1191627	22	2.0	20	82	8	50	34	0	23	41	1.55
1197435--1197473	18	2.2	17	86	13	53	33	0	20	46	1.51
1197595--1197620	8	3.2	8	100	0	52	23	11	26	38	1.89
1197707--1197759	23	2.3	23	96	0	97	24	20	26	28	1.99
1202570--1202626	2	28.5	2	100	0	114	50	49	0	0	1.00
1202925--1202961	10	3.7	10	92	0	56	0	40	8	51	1.32
1202929--1202961	14	2.4	14	94	0	57	0	39	9	51	1.34
1212301--1212355	27	2.0	27	100	0	110	40	3	25	30	1.73
1212782--1212826	21	2.2	21	84	4	56	57	0	4	37	1.19
1213120--1213167	10	4.8	10	82	10	62	33	6	0	60	1.22
1213138--1213204	34	1.9	35	84	3	91	35	7	1	55	1.37
1213104--1213169	10	6.6	10	72	20	50	34	4	0	60	1.17
1213236--1213326	10	9.3	10	74	12	82	37	3	2	57	1.28
1213236--1213325	19	4.6	19	74	10	67	37	3	2	56	1.28
1213712--1213784	38	1.9	38	83	5	94	46	8	13	31	1.73
1223829--1223863	4	9.0	4	87	6	54	74	0	2	22	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224960--1225025	33	2.0	33	93	0	114	21	25	16	36	1.94
1224996--1225131	44	3.1	44	78	4	141	28	21	16	33	1.95
1225273--1225538	44	6.0	45	82	3	254	31	16	16	35	1.91
1233534--1233578	19	2.3	20	81	7	58	40	8	24	26	1.84
1235345--1235447	42	2.4	43	80	7	122	31	25	18	25	1.98
1240459--1240504	18	2.6	17	80	6	56	65	4	6	23	1.35
1240557--1240597	12	3.4	12	87	9	57	75	0	2	21	0.92
1246091--1246222	25	5.3	25	87	1	185	18	28	21	32	1.96
1246093--1246222	49	2.6	50	91	2	208	17	27	21	33	1.96
1253209--1253303	25	3.8	25	80	0	109	21	25	16	36	1.94
1253250--1253322	25	2.9	25	85	4	76	20	23	19	36	1.95
1255506--1255769	136	1.9	136	91	0	429	38	9	18	32	1.84
1256424--1256473	25	2.0	25	92	7	84	44	0	4	52	1.20
1256527--1256552	5	5.2	5	100	0	52	80	0	19	0	0.71
1257361--1257489	43	3.0	43	78	13	129	23	19	27	30	1.98
1259700--1259746	16	2.9	16	84	6	51	8	14	4	72	1.24
1269774--1269840	34	1.9	35	87	3	100	29	5	14	49	1.68
1269821--1269905	32	2.6	32	74	9	91	27	9	17	45	1.79
1271173--1271241	35	1.9	36	97	2	131	52	18	2	26	1.60
1271209--1271278	27	2.5	28	81	6	81	52	21	2	22	1.60
1275352--1275419	25	2.6	27	84	15	97	39	8	26	25	1.85
1281118--1281146	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1284508--1284671	40	4.1	40	82	6	197	25	18	20	36	1.94
1284508--1284688	80	2.3	80	88	3	258	24	19	22	34	1.97
1284525--1284688	40	4.1	40	85	0	220	23	19	21	35	1.96
1291481--1291519	20	2.0	20	94	0	69	58	0	0	41	0.98
1291494--1291597	39	2.6	39	88	8	156	60	0	1	37	1.08
1291481--1291558	20	3.9	19	70	23	63	58	0	1	39	1.06
1291534--1291605	30	2.4	29	86	13	94	61	0	2	36	1.11
1291553--1291618	30	2.2	29	86	2	96	68	0	1	30	0.99
1297491--1297530	21	1.9	21	85	10	55	25	2	22	50	1.62
1297534--1297573	21	1.9	21	84	0	53	35	2	7	55	1.42
1299241--1299289	22	2.2	22	88	3	71	65	0	2	32	1.04
1304024--1304053	9	3.3	9	90	0	51	23	13	23	40	1.90
1304107--1304143	9	4.1	9	89	0	56	45	10	10	32	1.74
1307238--1307267	4	7.5	4	100	0	60	23	26	0	50	1.50
1310872--1310933	30	2.1	30	87	3	90	25	11	11	51	1.71
1316008--1316121	58	2.0	58	98	0	219	35	19	16	28	1.94
1333731--1333890	27	5.9	27	79	2	151	36	10	25	28	1.88
1333942--1334017	27	2.8	26	80	4	80	35	6	25	32	1.82
1336740--1336861	40	3.2	40	70	13	128	34	22	19	22	1.97
1336734--1336908	36	4.6	38	72	11	117	34	24	20	21	1.97
1336656--1336908	76	3.4	76	77	6	268	32	24	20	22	1.98
1337955--1338093	67	2.1	67	100	0	278	33	13	5	47	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1346999--1347074	15	5.1	15	93	0	134	55	21	10	13	1.67
1346996--1347074	30	2.6	30	100	0	158	56	20	10	12	1.64
1355513--1355571	24	2.5	24	86	5	84	32	20	30	16	1.95
1355606--1355664	26	2.3	26	88	5	84	37	20	25	16	1.93
1356659--1356691	14	2.2	16	89	10	52	18	12	0	69	1.18
1361967--1362022	27	2.1	26	83	9	69	39	1	0	58	1.08
1362962--1362996	2	17.5	2	100	0	70	51	0	48	0	1.00
1367702--1367790	25	3.1	30	76	18	91	24	23	7	43	1.80
1368382--1368414	11	2.9	11	95	4	57	90	0	3	6	0.52
1369625--1369672	6	8.0	6	83	0	60	33	45	0	20	1.52

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172